BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy17260
(679 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EG9|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
pdb|3EGD|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 764
Score = 544 bits (1402), Expect = e-155, Method: Compositional matrix adjust.
Identities = 283/556 (50%), Positives = 359/556 (64%), Gaps = 85/556 (15%)
Query: 177 MTTYEEFFYQNEERDGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLL 236
MTTY EF QNEERDG+R +WNVWPSS+LEA+R+V+PV L+ PLKE+PDLPP+QYEP+L
Sbjct: 1 MTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERPDLPPIQYEPVL 60
Query: 237 CMRNQCRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQFTTIEYT 296
C R CRA+LNPLCQVDY++KLW CNFC+QRN FPP YA I+E +QPAEL PQF++IEY
Sbjct: 61 CSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSSIEYV 120
Query: 297 IPKMQCAPLVFLFVVDTCMDEEELGALRDSLQMSLSLLPKNALVGLITFGQMVQVHELGC 356
+ + PL+FL+VVDTCM++E+L AL++S+QMSLSLLP ALVGLITFG+MVQVHELGC
Sbjct: 121 VLRGPQMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRMVQVHELGC 180
Query: 357 EGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXXTQFLQPVEACEM 416
EGIS+SYVFRGTKD+ A++LQEML + K ++ +FLQPV+ +M
Sbjct: 181 EGISKSYVFRGTKDLSAKQLQEMLGLSKVPLT--QATRGPQVQQPPPSNRFLQPVQKIDM 238
Query: 417 YATDLLAALQKGPVAVHQGREHCGPTGVAHVIAVGLLEGTL------------------- 457
TDLL LQ+ P V QG+ +GVA IAVGLLE T
Sbjct: 239 NLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGARIMMFIGGPATQGP 298
Query: 458 -----------IRSHNDIHKGNNKLPGRMATKITKGLALRAA--------YCRAIE---- 494
IRS +DI K N K + TK + LA RAA Y A++
Sbjct: 299 GMVVGDELKTPIRSWHDIDKDNAKYVKK-GTKHFEALANRAATTGHVIDIYACALDQTGL 357
Query: 495 ------------YLLVPPWINGLLLEY----------------------------ELCLM 514
Y+++ N L + E+ +
Sbjct: 358 LEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGFGGTLEIKTSREIKIS 417
Query: 515 GAIGPCVSLNLKNQCVSDQDLGMGGTASWKMCTLSPNTTLALFFEIVNQHGAPIPQGGPG 574
GAIGPCVSLN K CVS+ ++G GGT WK+C LSP TTLA++FE+VNQH APIPQGG G
Sbjct: 418 GAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFEVVNQHNAPIPQGGRG 477
Query: 575 CIQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAAAVIMGRMVVNRAEQD 634
IQF+T YQ SG++++RVTTIARNWADA TQ+ +I++ FDQEAAA++M R+ + RAE +
Sbjct: 478 AIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAASFDQEAAAILMARLAIYRAETE 537
Query: 635 DGPDVMRWADRTLIRL 650
+GPDV+RW DR LIRL
Sbjct: 538 EGPDVLRWLDRQLIRL 553
Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 60/100 (60%), Positives = 74/100 (74%), Gaps = 2/100 (2%)
Query: 73 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXVHKFLQPVEAC 132
GCEGIS+SYVFRGTKD+ A++LQEML + K ++ ++FLQPV+
Sbjct: 179 GCEGISKSYVFRGTKDLSAKQLQEMLGLSKVPLTQATRGPQVQQPPPS--NRFLQPVQKI 236
Query: 133 EMSLTDLLGGLQKDPWPVHQGKRALRSTGVALSIAVGLLE 172
+M+LTDLLG LQ+DPWPV QGKR LRS+GVALSIAVGLLE
Sbjct: 237 DMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLE 276
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/27 (85%), Positives = 26/27 (96%)
Query: 651 EGGAPVLTEDVSLQVFMEHLKKLAVSS 677
E GAP+LT+DVSLQVFM+HLKKLAVSS
Sbjct: 737 ESGAPILTDDVSLQVFMDHLKKLAVSS 763
>pdb|2NUP|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|A Chain A, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 769
Score = 543 bits (1400), Expect = e-155, Method: Compositional matrix adjust.
Identities = 283/558 (50%), Positives = 360/558 (64%), Gaps = 85/558 (15%)
Query: 175 ISMTTYEEFFYQNEERDGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEP 234
+ MTTY EF QNEERDG+R +WNVWPSS+LEA+R+V+PV L+ PLKE+PDLPP+QYEP
Sbjct: 3 MGMTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERPDLPPIQYEP 62
Query: 235 LLCMRNQCRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQFTTIE 294
+LC R CRA+LNPLCQVDY++KLW CNFC+QRN FPP YA I+E +QPAEL PQF++IE
Sbjct: 63 VLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSSIE 122
Query: 295 YTIPKMQCAPLVFLFVVDTCMDEEELGALRDSLQMSLSLLPKNALVGLITFGQMVQVHEL 354
Y + + PL+FL+VVDTCM++E+L AL++S+QMSLSLLP ALVGLITFG+MVQVHEL
Sbjct: 123 YVVLRGPQMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRMVQVHEL 182
Query: 355 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXXTQFLQPVEAC 414
GCEGIS+SYVFRGTKD+ A++LQEML + K ++ +FLQPV+
Sbjct: 183 GCEGISKSYVFRGTKDLSAKQLQEMLGLSKVPVT--QATRGPQVQQPPPSNRFLQPVQKI 240
Query: 415 EMYATDLLAALQKGPVAVHQGREHCGPTGVAHVIAVGLLEGTL----------------- 457
+M TDLL LQ+ P V QG+ +GVA IAVGLLE T
Sbjct: 241 DMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGARIMMFIGGPATQ 300
Query: 458 -------------IRSHNDIHKGNNKLPGRMATKITKGLALRAA--------YCRAIE-- 494
IRS +DI K N K + TK + LA RAA Y A++
Sbjct: 301 GPGMVVGDELKTPIRSWHDIDKDNAKYVKK-GTKHFEALANRAATTGHVIDIYACALDQT 359
Query: 495 --------------YLLVPPWINGLLLEY----------------------------ELC 512
Y+++ N L + E+
Sbjct: 360 GLLEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGFGGTLEIKTSREIK 419
Query: 513 LMGAIGPCVSLNLKNQCVSDQDLGMGGTASWKMCTLSPNTTLALFFEIVNQHGAPIPQGG 572
+ GAIGPCVSLN K CVS+ ++G GGT WK+C LSP TTLA++FE+VNQH APIPQGG
Sbjct: 420 ISGAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFEVVNQHNAPIPQGG 479
Query: 573 PGCIQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAAAVIMGRMVVNRAE 632
G IQF+T YQ SG++++RVTTIARNWADA TQ+ +I++ FDQEAAA++M R+ + RAE
Sbjct: 480 RGAIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAASFDQEAAAILMARLAIYRAE 539
Query: 633 QDDGPDVMRWADRTLIRL 650
++GPDV+RW DR LIRL
Sbjct: 540 TEEGPDVLRWLDRQLIRL 557
Score = 117 bits (292), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 60/100 (60%), Positives = 74/100 (74%), Gaps = 2/100 (2%)
Query: 73 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXVHKFLQPVEAC 132
GCEGIS+SYVFRGTKD+ A++LQEML + K ++ ++FLQPV+
Sbjct: 183 GCEGISKSYVFRGTKDLSAKQLQEMLGLSKVPVTQATRGPQVQQPPPS--NRFLQPVQKI 240
Query: 133 EMSLTDLLGGLQKDPWPVHQGKRALRSTGVALSIAVGLLE 172
+M+LTDLLG LQ+DPWPV QGKR LRS+GVALSIAVGLLE
Sbjct: 241 DMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLE 280
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/27 (85%), Positives = 26/27 (96%)
Query: 651 EGGAPVLTEDVSLQVFMEHLKKLAVSS 677
E GAP+LT+DVSLQVFM+HLKKLAVSS
Sbjct: 741 ESGAPILTDDVSLQVFMDHLKKLAVSS 767
>pdb|3EFO|A Chain A, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
Length = 765
Score = 541 bits (1394), Expect = e-154, Method: Compositional matrix adjust.
Identities = 282/556 (50%), Positives = 358/556 (64%), Gaps = 85/556 (15%)
Query: 177 MTTYEEFFYQNEERDGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLL 236
MTTY EF QNEERDG+R +WNVWPSS+LEA+R+V+PV L+ PLKE+PDLPP+QYEP+L
Sbjct: 1 MTTYLEFIQQNEERDGVRFSWNVWPSSRLEATRMVVPVAALFTPLKERPDLPPIQYEPVL 60
Query: 237 CMRNQCRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQFTTIEYT 296
C R CRA+LNPLCQVDY++KLW CNFC+QRN FPP YA I+E +QPAEL PQF++IEY
Sbjct: 61 CSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPAELLPQFSSIEYV 120
Query: 297 IPKMQCAPLVFLFVVDTCMDEEELGALRDSLQMSLSLLPKNALVGLITFGQMVQVHELGC 356
+ + PL+FL+VVDTCM++E+L AL++S+QMSLSLLP ALVGLITFG+MVQVHELGC
Sbjct: 121 VLRGPQMPLIFLYVVDTCMEDEDLQALKESMQMSLSLLPPTALVGLITFGRMVQVHELGC 180
Query: 357 EGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXXTQFLQPVEACEM 416
EGIS+SYVFRGT D+ A++LQEML + K ++ +FLQPV+ +M
Sbjct: 181 EGISKSYVFRGTGDLSAKQLQEMLGLSKVPLT--QATRGPQVQQPPPSNRFLQPVQKIDM 238
Query: 417 YATDLLAALQKGPVAVHQGREHCGPTGVAHVIAVGLLEGTL------------------- 457
TDLL LQ+ P V QG+ +GVA IAVGLLE T
Sbjct: 239 NLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLECTFPNTGARIMMFIGGPATQGP 298
Query: 458 -----------IRSHNDIHKGNNKLPGRMATKITKGLALRAA--------YCRAIE---- 494
IRS +DI K N K + TK + LA RAA Y A++
Sbjct: 299 GMVVGDELKTPIRSWHDIDKDNAKYVKK-GTKHFEALANRAATTGHVIDIYACALDQTGL 357
Query: 495 ------------YLLVPPWINGLLLEY----------------------------ELCLM 514
Y+++ N L + E+ +
Sbjct: 358 LEMKCCPNLTGGYMVMGDSFNTSLFKQTFQRVFTKDMHGQFKMGFGGTLEIKTSREIKIS 417
Query: 515 GAIGPCVSLNLKNQCVSDQDLGMGGTASWKMCTLSPNTTLALFFEIVNQHGAPIPQGGPG 574
GAIGPCVSLN K CVS+ ++G GGT WK+C LSP TTLA++FE+VNQH APIPQGG G
Sbjct: 418 GAIGPCVSLNSKGPCVSENEIGTGGTCQWKICGLSPTTTLAIYFEVVNQHNAPIPQGGRG 477
Query: 575 CIQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAAAVIMGRMVVNRAEQD 634
IQF+T YQ SG++++RVTTIARNWADA TQ+ +I++ FDQEAAA++M R+ + RAE +
Sbjct: 478 AIQFVTQYQHSSGQRRIRVTTIARNWADAQTQIQNIAASFDQEAAAILMARLAIYRAETE 537
Query: 635 DGPDVMRWADRTLIRL 650
+GPDV+RW DR LIRL
Sbjct: 538 EGPDVLRWLDRQLIRL 553
Score = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 59/100 (59%), Positives = 73/100 (73%), Gaps = 2/100 (2%)
Query: 73 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSMSXXXXXXXXXXXXXXXVHKFLQPVEAC 132
GCEGIS+SYVFRGT D+ A++LQEML + K ++ ++FLQPV+
Sbjct: 179 GCEGISKSYVFRGTGDLSAKQLQEMLGLSKVPLTQATRGPQVQQPPPS--NRFLQPVQKI 236
Query: 133 EMSLTDLLGGLQKDPWPVHQGKRALRSTGVALSIAVGLLE 172
+M+LTDLLG LQ+DPWPV QGKR LRS+GVALSIAVGLLE
Sbjct: 237 DMNLTDLLGELQRDPWPVPQGKRPLRSSGVALSIAVGLLE 276
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/27 (85%), Positives = 26/27 (96%)
Query: 651 EGGAPVLTEDVSLQVFMEHLKKLAVSS 677
E GAP+LT+DVSLQVFM+HLKKLAVSS
Sbjct: 737 ESGAPILTDDVSLQVFMDHLKKLAVSS 763
>pdb|2QTV|A Chain A, Structure Of Sec23-Sar1 Complexed With The Active Fragment
Of Sec31
Length = 772
Score = 199 bits (506), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 152/275 (55%), Gaps = 5/275 (1%)
Query: 184 FYQNEERDGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMRNQCR 243
F NE+ +G+R TWNV+PS++ +A+ V+PVGCLY PLKE +L Y P++C C+
Sbjct: 7 FETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEYDELNVAPYNPVVCSGPHCK 66
Query: 244 AILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQFTTIEYTIPKMQCA 303
+ILNP C +D ++ W C C RN PPQY +++++ P EL Q TTIEY K
Sbjct: 67 SILNPYCVIDPRNSSWSCPICNSRNHLPPQYTNLSQENMPLEL--QSTTIEYITNKPVTV 124
Query: 304 PLVFLFVVDTCMDEEELGALRDSLQMSLSLLPKNALVGLITFGQMVQVHELGCEGISRSY 363
P +F FVVD + E L +L++S+ SLSLLP NAL+GLIT+G +VQ+H+L E I R
Sbjct: 125 PPIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDLSSETIDRCN 184
Query: 364 VFRGTKDVPAQRLQEMLRIGKYS---MSXXXXXXXXXXXXXXXXTQFLQPVEACEMYATD 420
VFRG ++ + L EML K + + +F P+E E
Sbjct: 185 VFRGDREYQLEALTEMLTGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPLEQVEFKLNQ 244
Query: 421 LLAALQKGPVAVHQGREHCGPTGVAHVIAVGLLEG 455
LL L +V G TG A IA LL+G
Sbjct: 245 LLENLSPDQWSVPAGHRPLRATGSALNIASLLLQG 279
Score = 116 bits (291), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 64/151 (42%), Positives = 90/151 (59%), Gaps = 12/151 (7%)
Query: 510 ELCLMGAIGPCVSLNLKN-QCVSDQDLGMGGTASWKMCTLSPNTTLALFFEIVNQHGAPI 568
+L + G IG ++ + +S+ ++G+G T++WKM +LSP + A+FFEI N
Sbjct: 415 DLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTAANSN 474
Query: 569 PQ-GGPGC--------IQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAA 619
P PG QFIT YQ SG ++RVTT+A T I++ FDQEAA
Sbjct: 475 PMMSAPGSADRPHLAYTQFITTYQHSSGTNRIRVTTVANQLLPFGTPA--IAASFDQEAA 532
Query: 620 AVIMGRMVVNRAEQDDGPDVMRWADRTLIRL 650
AV+M R+ V++AE DDG DV+RW DRTLI+L
Sbjct: 533 AVLMARIAVHKAETDDGADVIRWLDRTLIKL 563
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 47/103 (45%), Gaps = 3/103 (2%)
Query: 73 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSM---SXXXXXXXXXXXXXXXVHKFLQPV 129
E I R VFRG ++ + L EML K + + +++F P+
Sbjct: 176 SSETIDRCNVFRGDREYQLEALTEMLTGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPL 235
Query: 130 EACEMSLTDLLGGLQKDPWPVHQGKRALRSTGVALSIAVGLLE 172
E E L LL L D W V G R LR+TG AL+IA LL+
Sbjct: 236 EQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSALNIASLLLQ 278
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/25 (64%), Positives = 20/25 (80%)
Query: 652 GGAPVLTEDVSLQVFMEHLKKLAVS 676
G VLT+DVSLQ FM HL+++AVS
Sbjct: 745 GSTIVLTDDVSLQNFMTHLQQVAVS 769
>pdb|1M2O|A Chain A, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2O|C Chain C, Crystal Structure Of The Sec23-Sar1 Complex
pdb|1M2V|A Chain A, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 768
Score = 199 bits (505), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 152/275 (55%), Gaps = 5/275 (1%)
Query: 184 FYQNEERDGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMRNQCR 243
F NE+ +G+R TWNV+PS++ +A+ V+PVGCLY PLKE +L Y P++C C+
Sbjct: 3 FETNEDINGVRFTWNVFPSTRSDANSNVVPVGCLYTPLKEYDELNVAPYNPVVCSGPHCK 62
Query: 244 AILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQFTTIEYTIPKMQCA 303
+ILNP C +D ++ W C C RN PPQY +++++ P EL Q TTIEY K
Sbjct: 63 SILNPYCVIDPRNSSWSCPICNSRNHLPPQYTNLSQENMPLEL--QSTTIEYITNKPVTV 120
Query: 304 PLVFLFVVDTCMDEEELGALRDSLQMSLSLLPKNALVGLITFGQMVQVHELGCEGISRSY 363
P +F FVVD + E L +L++S+ SLSLLP NAL+GLIT+G +VQ+H+L E I R
Sbjct: 121 PPIFFFVVDLTSETENLDSLKESIITSLSLLPPNALIGLITYGNVVQLHDLSSETIDRCN 180
Query: 364 VFRGTKDVPAQRLQEMLRIGKYS---MSXXXXXXXXXXXXXXXXTQFLQPVEACEMYATD 420
VFRG ++ + L EML K + + +F P+E E
Sbjct: 181 VFRGDREYQLEALTEMLTGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPLEQVEFKLNQ 240
Query: 421 LLAALQKGPVAVHQGREHCGPTGVAHVIAVGLLEG 455
LL L +V G TG A IA LL+G
Sbjct: 241 LLENLSPDQWSVPAGHRPLRATGSALNIASLLLQG 275
Score = 116 bits (291), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 64/151 (42%), Positives = 90/151 (59%), Gaps = 12/151 (7%)
Query: 510 ELCLMGAIGPCVSLNLKN-QCVSDQDLGMGGTASWKMCTLSPNTTLALFFEIVNQHGAPI 568
+L + G IG ++ + +S+ ++G+G T++WKM +LSP + A+FFEI N
Sbjct: 411 DLKVQGLIGHASAVKKTDANNISESEIGIGATSTWKMASLSPYHSYAIFFEIANTAANSN 470
Query: 569 PQ-GGPGC--------IQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAA 619
P PG QFIT YQ SG ++RVTT+A T I++ FDQEAA
Sbjct: 471 PMMSAPGSADRPHLAYTQFITTYQHSSGTNRIRVTTVANQLLPFGTPA--IAASFDQEAA 528
Query: 620 AVIMGRMVVNRAEQDDGPDVMRWADRTLIRL 650
AV+M R+ V++AE DDG DV+RW DRTLI+L
Sbjct: 529 AVLMARIAVHKAETDDGADVIRWLDRTLIKL 559
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 47/103 (45%), Gaps = 3/103 (2%)
Query: 73 GCEGISRSYVFRGTKDVPAQRLQEMLRIGKYSM---SXXXXXXXXXXXXXXXVHKFLQPV 129
E I R VFRG ++ + L EML K + + +++F P+
Sbjct: 172 SSETIDRCNVFRGDREYQLEALTEMLTGQKPTGPGGAASHLPNAMNKVTPFSLNRFFLPL 231
Query: 130 EACEMSLTDLLGGLQKDPWPVHQGKRALRSTGVALSIAVGLLE 172
E E L LL L D W V G R LR+TG AL+IA LL+
Sbjct: 232 EQVEFKLNQLLENLSPDQWSVPAGHRPLRATGSALNIASLLLQ 274
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/25 (64%), Positives = 20/25 (80%)
Query: 652 GGAPVLTEDVSLQVFMEHLKKLAVS 676
G VLT+DVSLQ FM HL+++AVS
Sbjct: 741 GSTIVLTDDVSLQNFMTHLQQVAVS 765
>pdb|2YRC|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Length = 59
Score = 92.4 bits (228), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 37/52 (71%), Positives = 44/52 (84%)
Query: 233 EPLLCMRNQCRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPA 284
EP+LC R CRA+LNPLCQVDY++KLW CNFC+QRN FPP YA I+E +QPA
Sbjct: 8 EPVLCSRTTCRAVLNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPA 59
>pdb|2YRD|A Chain A, Solution Structure Of The Zf-Sec23_sec24 From Human Sec23a
Mutant V69a
Length = 59
Score = 90.9 bits (224), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 37/52 (71%), Positives = 43/52 (82%)
Query: 233 EPLLCMRNQCRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPA 284
EP+LC R CRA LNPLCQVDY++KLW CNFC+QRN FPP YA I+E +QPA
Sbjct: 8 EPVLCSRTTCRAALNPLCQVDYRAKLWACNFCYQRNQFPPSYAGISELNQPA 59
>pdb|2NUP|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|B Chain B, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 753
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 53/177 (29%), Positives = 79/177 (44%), Gaps = 19/177 (10%)
Query: 193 IRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMRNQCRAILNPLCQV 252
RCT P ++ ++ +P+G L P K+ LP + ++ R+ CR +NP
Sbjct: 46 FRCTLTSIPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIVRCRS-CRTYINPFVSF 104
Query: 253 DYKSKLWVCNFCFQRNAFPPQ--YAAIT----EQHQPAELHPQFTTIEYTIPKMQC---- 302
+ W CN C++ N P + Y +T E H+ E+ Q TIE+ P
Sbjct: 105 -LDQRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEV--QNATIEFMAPSEYMLRPP 161
Query: 303 APLVFLFVVDTCMDEEELGALRD---SLQMSLSLLPKNAL--VGLITFGQMVQVHEL 354
P V+LFV D + E G L SL +L LLP N +G ITF + + L
Sbjct: 162 QPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGL 218
>pdb|3EGD|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 748
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 53/177 (29%), Positives = 79/177 (44%), Gaps = 19/177 (10%)
Query: 193 IRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMRNQCRAILNPLCQV 252
RCT P ++ ++ +P+G L P K+ LP + ++ R+ CR +NP
Sbjct: 41 FRCTLTSIPQTQALLNKAKLPLGLLLHPFKDLVQLPVVTSSTIVRCRS-CRTYINPFVSF 99
Query: 253 DYKSKLWVCNFCFQRNAFPPQ--YAAIT----EQHQPAELHPQFTTIEYTIPKMQC---- 302
+ W CN C++ N P + Y +T E H+ E+ Q TIE+ P
Sbjct: 100 -LDQRRWKCNLCYRVNDVPEEFLYNPLTRVYGEPHRRPEV--QNATIEFMAPSEYMLRPP 156
Query: 303 APLVFLFVVDTCMDEEELGALRD---SLQMSLSLLPKNAL--VGLITFGQMVQVHEL 354
P V+LFV D + E G L SL +L LLP N +G ITF + + L
Sbjct: 157 QPPVYLFVFDVSHNAVETGYLNSVCQSLLDNLDLLPGNTRTKIGFITFDSTIHFYGL 213
>pdb|3EH1|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24b
Length = 751
Score = 62.4 bits (150), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 83/184 (45%), Gaps = 16/184 (8%)
Query: 191 DGIRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMRNQCRAILNPLC 250
D RCT P ++ ++ +P+G L P ++ LP + ++ R+ CR +NP
Sbjct: 41 DSFRCTLTNIPQTQALLNKAKLPLGLLLHPFRDLTQLPVITSNTIVRCRS-CRTYINPFV 99
Query: 251 QVDYKSKLWVCNFCFQRNAFPPQ--YAAITEQHQPAELHP--QFTTIEYTIPKMQC---- 302
+ W CN C++ N P + Y +T + P Q +T+E+
Sbjct: 100 SF-IDQRRWKCNLCYRVNDVPEEFMYNPLTRSYGEPHKRPEVQNSTVEFIASSDYMLRPP 158
Query: 303 APLVFLFVVDTCMDEEELGALR---DSLQMSLSLLPKNA--LVGLITFGQMVQVHELGCE 357
P V+LFV+D + E G L SL +L LP ++ +G +TF + + L E
Sbjct: 159 QPAVYLFVLDVSHNAVEAGYLTILCQSLLENLDKLPGDSRTRIGFMTFDSTIHFYNLQ-E 217
Query: 358 GISR 361
G+S+
Sbjct: 218 GLSQ 221
Score = 32.3 bits (72), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 575 CIQFITHYQAPSGEKKVRVTTIARNWADATTQLDHISSGFDQEAAAVIMGRMVVNRA 631
C Q Y + GE+++RV T+ + L + +G D +AA ++ M V+R+
Sbjct: 460 CFQTALLYTSSKGERRIRVHTLC---LPVVSSLADVYAGVDVQAAICLLANMAVDRS 513
>pdb|1PCX|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Bet1
pdb|1PD0|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Sed5
(Yeast Syntaxin-5)
pdb|1PD1|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide Containing The Dxe Cargo
Sorting Signal Of Yeast Sys1 Protein
Length = 810
Score = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 48/164 (29%), Positives = 70/164 (42%), Gaps = 22/164 (13%)
Query: 187 NEERDGIRCTWNVWP--SSKLEASRLVMPVGCL---YQPLKEKPDLPPLQYEPLLCMRNQ 241
N D IR T N P SS L+ S+L P G + YQ L + D PPL + L+ +
Sbjct: 60 NASPDYIRSTLNAVPKNSSLLKKSKL--PFGLVIRPYQHLYDDIDPPPLNEDGLIVRCRR 117
Query: 242 CRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQF-------TTIE 294
CR+ +NP + + W CNFC N P Q +Q P + ++ +E
Sbjct: 118 CRSYMNPFVTFIEQGRRWRCNFCRLANDVPMQ----MDQSDPNDPKSRYDRNEIKCAVME 173
Query: 295 YTIPK----MQCAPLVFLFVVDTCMDEEELGALRDSLQMSLSLL 334
Y PK Q P + F++D + G L ++ L L
Sbjct: 174 YMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNL 217
>pdb|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 48/164 (29%), Positives = 70/164 (42%), Gaps = 22/164 (13%)
Query: 187 NEERDGIRCTWNVWP--SSKLEASRLVMPVGCL---YQPLKEKPDLPPLQYEPLLCMRNQ 241
N D IR T N P SS L+ S+L P G + YQ L + D PPL + L+ +
Sbjct: 176 NASPDYIRSTLNAVPKNSSLLKKSKL--PFGLVIRPYQHLYDDIDPPPLNEDGLIVRCRR 233
Query: 242 CRAILNPLCQVDYKSKLWVCNFCFQRNAFPPQYAAITEQHQPAELHPQF-------TTIE 294
CR+ +NP + + W CNFC N P Q +Q P + ++ +E
Sbjct: 234 CRSYMNPFVTFIEQGRRWRCNFCRLANDVPMQ----MDQSDPNDPKSRYDRNEIKCAVME 289
Query: 295 YTIPK----MQCAPLVFLFVVDTCMDEEELGALRDSLQMSLSLL 334
Y PK Q P + F++D + G L ++ L L
Sbjct: 290 YMAPKEYTLRQPPPATYCFLIDVSQSSIKSGLLATTINTLLQNL 333
>pdb|3EH2|A Chain A, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|B Chain B, Crystal Structure Of The Human Copii-Coat Protein Sec24c
pdb|3EH2|C Chain C, Crystal Structure Of The Human Copii-Coat Protein Sec24c
Length = 766
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 44/191 (23%), Positives = 78/191 (40%), Gaps = 32/191 (16%)
Query: 193 IRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKPDLPPLQYEPLLCMR--------NQCRA 244
IRCT P + A + +P+ + +PL LPP + P + N+C+A
Sbjct: 46 IRCTSYNIPCTSDMAKQAQVPLAAVIKPLAR---LPPEEASPYVVDHGESGPLRCNRCKA 102
Query: 245 ILNPLCQVDYKSKLWVCNFCFQRNAFPPQY---AAITEQHQPAELHPQFT--------TI 293
+ P Q + + C FC N PPQY T + A P+ + T+
Sbjct: 103 YMCPFMQFIEGGRRFQCCFCSCINDVPPQYFQHLDHTGKRVDAYDRPELSLGSYEFLATV 162
Query: 294 EYTIPKMQCAPLVFLFVVDTCMDEEELGALR---DSLQMSLSLLPKNA-------LVGLI 343
+Y +P F+F++D + G +R + L+ L LP+ VG +
Sbjct: 163 DYCKNNKFPSPPAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLPREGGAEESAIRVGFV 222
Query: 344 TFGQMVQVHEL 354
T+ +++ + +
Sbjct: 223 TYNKVLHFYNV 233
>pdb|3EFO|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
SYNTAXIN 5
pdb|3EG9|B Chain B, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec2324 BOUND TO THE TRANSPORT SIGNAL SEQUENCE OF
MEMBRIN
Length = 770
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/186 (22%), Positives = 76/186 (40%), Gaps = 30/186 (16%)
Query: 193 IRCTWNVWPSSKLEASRLVMPVGCLYQPLKEKP-DLPPL------QYEPLLCMRNQCRAI 245
IRCT +P + A + +P+ + +P P + PL + P+ C N+C+A
Sbjct: 50 IRCTTYCFPCTSDMAKQAQIPLAAVIKPFATIPSNESPLYLVNHGESGPVRC--NRCKAY 107
Query: 246 LNPLCQVDYKSKLWVCNFCFQRNAFPPQY-------AAITEQHQPAEL----HPQFTTIE 294
+ P Q + + C FC N PP Y + ++ EL + T++
Sbjct: 108 MCPFMQFIEGGRRYQCGFCNCVNDVPPFYFQHLDHIGRRLDHYEKPELSLGSYEYVATLD 167
Query: 295 YTIPKMQCAPLVFLFVVDTCMDEEELGALR---DSLQMSLSLLPKNA-------LVGLIT 344
Y P F+F++D + G ++ + L+ L +PK VG IT
Sbjct: 168 YCRKSKPPNPPAFIFMIDVSYSNIKNGLVKLICEELKTMLEKIPKEEQEETSAIRVGFIT 227
Query: 345 FGQMVQ 350
+ +++
Sbjct: 228 YNKVLH 233
>pdb|1MUK|A Chain A, Reovirus Lambda3 Native Structure
pdb|1MWH|A Chain A, Reovirus Polymerase Lambda3 Bound To Mrna Cap Analog
pdb|1N1H|A Chain A, Initiation Complex Of Polymerase Lambda3 From Reovirus
pdb|1N35|A Chain A, Lambda3 Elongation Complex With Four Phosphodiester Bond
Formed
pdb|1N38|A Chain A, Reovirus Polymerase Lambda3 Elongation Complex With One
Phosphodiester Bond Formed
pdb|1UON|A Chain A, Reovirus Polymerase Lambda-3 Localized By Electron
Cryomicroscopy Of Virions At 7.6-a Resolution
Length = 1267
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 215 GCLYQPLKEKPD-LPPLQYE-PLLCMRNQCRAILNPL 249
G LY P+ +K D +P L + PL C R CR I PL
Sbjct: 165 GSLYDPVLQKYDEIPDLSHNCPLWCFREICRHISGPL 201
>pdb|2CSE|1 Chain 1, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
Electron And Image Reconstruction Of The Virion At 7.0-A
Resolution
Length = 1267
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 215 GCLYQPLKEKPD-LPPLQYE-PLLCMRNQCRAILNPL 249
G LY P+ +K D +P L + PL C R CR I PL
Sbjct: 165 GSLYDPVLQKYDEIPDLSHNCPLWCFREICRHISGPL 201
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,506,603
Number of Sequences: 62578
Number of extensions: 734091
Number of successful extensions: 1371
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1322
Number of HSP's gapped (non-prelim): 38
length of query: 679
length of database: 14,973,337
effective HSP length: 105
effective length of query: 574
effective length of database: 8,402,647
effective search space: 4823119378
effective search space used: 4823119378
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)